Jensen E T ET - OmicsDI

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Unknown (155)
Transcriptomics (43)
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Genomics (23)
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Homo sapiens (25)
Caenorhabditis elegans (23)
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Nicotiana benthamiana (2)
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Drosophila melanogaster (1)
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Candidatus Accumulibacter phosphatis (1)
Cupriavidus necator H16 (1)
Phytophthora cinnamomi (1)
Rauvolfia tetraphylla (1)
Sinorhizobium meliloti 1021 (1)
prokaryotic environmental samples (1)

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biostudies-arrayexpress (63)
pride (31)
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Phyllodes tumor (1)
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Mass Spectrometry (31)
Shotgun proteomics (18)
Affinity purification coupled with mass spectrometry proteomics (5)
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Illumina HiSeq 2500, ILLUMINA (1)
Mass spectrometry (1)
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Sodium dodecyl sulfate polyacrylamide gel electrophoresis (1)

Instrument Platform

NextSeq 500 (3)
Illumina NovaSeq 6000 (2)
LTQ (2)
Liquid Chromatography MS - positive - reverse-phase (2)
DNBSEQ G40 (1)
BD FACSAria Fusion (1)
Element AVITI (1)
PromethION (1)
Computerome (1)
ScanArray 5000 [PerkinElmer] (1)
GenePix 4000A [Axon Instruments] (1)
GenePix 4000B [Axon Instruments] (1)
Sony SH800S (1)
DNBSEQ-G400 (1)
NextSeq 550 (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 4000 (1)
LTQ Orbitrap Velos (1)
Gas Chromatography MS - positive (1)
Liquid Chromatography MS - alternating - hilic (1)

Publication Date

2011 (28)
2022 (8)
2024 (7)
2015 (7)
2014 (7)
2025 (6)
2026 (5)
2016 (4)
2012 (4)
2019 (3)
2017 (3)
2013 (3)
2023 (3)
2021 (3)
2007 (2)
2020 (2)
2018 (1)
2010 (1)
2008 (1)
2006 (1)
2005 (1)

CHEBI ID

CHEBI:15603 (1)
CHEBI:15682 (1)
CHEBI:15859 (1)
CHEBI:16015 (1)
CHEBI:16695 (1)
CHEBI:17202 (1)
CHEBI:22660 (1)
CHEBI:28867 (1)
CHEBI:30865 (1)
CHEBI:35932 (1)
CHEBI:48430 (1)
CHEBI:73025 (1)

Metabolite Name

(Nω-L-arginino)succinic acid (1)
3-methyl-2-oxovaleric acid (1)
4-methyl-2-oxopentanoic acid (1)
Aspartic acid (1)
Dihydroorotic acid (1)
IMP (1)
L-glutamic acid (1)
L-leucine (1)
N-carbamoyl-L-aspartic acid (1)
O-isovalerylcarnitine (1)
O-propanoylcarnitine (1)
Uridine 5'-monophosphate (1)

Study type

ChIP-seq (19)
Transcription profiling by array (19)
RNA-seq of coding RNA (7)
ChIP-chip by tiling array (6)
Other (3)
RNA-seq of coding RNA from single cells (3)
RNA-seq of non coding RNA (2)
ChIP-chip by array (1)
Comparative genomic hybridization by array (1)
DNA-seq (1)
Methylation profiling by array (1)

Release Date

2011 (31)
2022 (24)
2024 (20)
2014 (17)
2015 (16)
2021 (14)
2025 (11)
2018 (10)
2012 (10)
2023 (10)
2020 (10)
2019 (9)
2017 (9)
2013 (9)
2016 (8)
2010 (3)
2007 (2)
2026 (1)
2008 (1)
2006 (1)
2005 (1)
2009 (1)

Lab affiliation

Max Planck Institute for Terrestrial Microbiology Karl-von-Frisch Str. 10 35043 Marburg Germany (2)
Associate Professor, Whitehead Institute for Biomedical Research and Massachusetts Institute for Technology (1)
Biomolécules et Biotechnologies Végétales, EA2106, Université de Tours, 37200 Tours, France (1)
Clinical Neuroproteomics Unit Navarrabiomed Proteored-ISCIII Pamplona-Spain (1)
Cornell University Department of Microbiology (1)
Department of Biochemistry and Molecular Biology, University of Southern Denmark, Odense, Denmark (1)
Department of Biomedical Engineering, University of Wisconsin-Madison (1)
Department of Chemistry, Lomonosov Moscow State University, Leninskye Gory 1, 119991 Moscow, Russia (1)
Department of Proteomics and Signal Transduction Max Planck Institute of Biochemistry Germany (1)
Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (1)
Department of Rheumatology and Inflammation research, Sahlgrenska academy, Gothenburg University, Gothenburg, Sweden (1)
Department of Urology, Department of Biochemistry and Molecular Biology, Cancer Research Institute, SUNY Upstate Medical University, 750 E. Adams St., Syracuse, NY 13210, USA (1)
Department of Urology, Department of Biochemistry and Molecular Biology, Cancer Research Institute, SUNY Upstate Medical University, 750 E. Adams St., Syracuse, NY 13210, USA (1)
GLOBE Institute, University of Copenhagen (Denmark) (1)
Gregor Mendel Institute (GMI) Austrian Academy of Sciences Vienna BioCenter (VBC) Dr. Bohr-Gasse 3 1030 Vienna, Austria (1)
Group leader, Professor Novo Nordisk Foundation Center for Protein Research University of Copenhagen Faculty of Health and Medical Sciences (1)
Hans Merensky Chair in Avocado Research, Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria 0028, South Africa (1)
Institute of Molecular Biology gGmbH(IMB), Mainz, 55128, Germany (1)
Laboratory for Molecular Cancer Biology, Center for Cancer Biology, VIB, Leuven, Belgium; Laboratory for Molecular Cancer Biology, Department of Oncology, KULeuven, Leuven, Belgium (1)
Max Delbrück Center for Molecular Medicine in the Helmholtz Association (1)
North Carolina State University (1)
Nuffield Department of Medicine (1)
Professor, NNF-Center for Protein Research, University of Copenhagen (1)
Section eScience (S.3), Federal Institute for Materials Research and Testing, Berlin, Germany Bioinformatics Unit (MF1), Department for Methods Development and Research Infrastructure, Robert Koch Institute, Berlin, Germany (1)
The Sainsbury Laboratory, University of East Anglia, Norwich Research Park, NR4 7UK, United Kingdom (1)
The University of Queensland, Advanced Water Management Centre (AWMC), QLD 4072, Australia (1)
University of Copenhagen Novo Nordisk Foundation Center for Protein Research Blegdamsvej 3B, 6.1 DK-2200 Copenhagen N Denmark (1)
Weizmann Institute of science (1)
William A. Brookshire Department of Chemical and Biomolecular Engineering, University of Houston, Houston, TX, US (1)
Yale Cancer Biology Institute, Department of Pharmacology, Yale University School of Medicine (1)

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Accurate quantification of site-specific acetylation stoichiometry reveals the impact of sirtuin deacetylase CobB on the E. coli acetylome

We applied SD-SILAC to determine absolute acetylation stoichiometry in exponentially-growing and stationary-phase wild type and sirtuin deacetylase CobB-deficient E. coli. We further assayed stoichiometry in phophotransacetylase (pta) and acetate kinase (ackA) mutant strains in the presence and abse...

ORGANISM(S): Escherichia coli

2017-03-07 | PXD005757 | Pride

Lymphocyte gene expression data from moderate stage HD patients and controls

Highly quantitative biomarkers of neurodegenerative disease remain an important need in the urgent quest for disease modifying therapies. For Huntington's disease (HD), a genetic test is available (trait marker), but necessary state markers are still in development. In this report, we describe a lar...

ORGANISM(S): Homo sapiens

2007-08-15 | E-GEOD-8762 | biostudies-arrayexpress

Breed gene expression differences in adult parent chicken with Affymetrix Chicken Gene Chip

Heritable epigenetic variation in wild and domesticated chickens. Original processed data are available in the archive: http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-645/E-MTAB-645.additional.zip

ORGANISM(S): Gallus gallus

2011-05-10 | E-MTAB-645 | biostudies-arrayexpress

Breed gene expression differences in young offspring chicken with Affymetrix Chicken Gene Chip

Heritable epigenetic variation in wild and domesticated chickens. Original processed data are available in the archive: http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-644/E-MTAB-644.additional.zip

ORGANISM(S): Gallus gallus

2011-05-10 | E-MTAB-644 | biostudies-arrayexpress

ZAKb is a cellular compression sensor that mediates hypertrophic signaling in skeletal muscle

Mechanosensing is required for the senses of touch and hearing, and impacts on cellular processes such as cell differentiation, migration, invasion and tissue homeostasis. Mechanical inputs give rise to p38- and JNK-signaling, which mediates adaptive physiological responses in various tissues. In mu...

ORGANISM(S): Mus musculus (Mouse)

2022-05-31 | PXD028548 | Pride

Zak Phosphoproteomics Mouse. muscle

Elucidation of the role of murine lncRNA LL35 in hepatocytes by LC-MSMS

Long non-coding RNAs (lncRNAs) play important roles in the regulation of many biological processes in the cell like transcription, translation, splicing, transport, etc. More than 10K lncRNAs are predicted in human, but functions for the majority remain unknown. LncRNAs may contribute to the develop...

ORGANISM(S): Mus musculus (Mouse)

2022-08-11 | PXD033910 | Pride

Lc-msms Murine lncrna ll35 Aml12 cells

Fermentation of soy juice by Lactiplantibacillus plantarum confers a yogurt-like texture, flavours and health-promoting metabolites

The aim of the study was to decipher metabolisms responsible (i) for the peculiar adaptation of L. plantarum during soy juice fermentation and (ii) for the release of aroma compounds, amino and short-chain fatty acid, and metabolites with health-promoting properties in soy yogurt. The strategy was t...

ORGANISM(S): Lactiplantibacillus plantarum

2024-08-18 | E-MTAB-14345 | biostudies-arrayexpress

Transcription profiling of Bos taurus mammary gland infected with E. coli or S. aureus to investigate response to pathogen invasion and identify general and pathogen-specific transcriptional profiles

Investigation of the bovine mammary gland response to Escherichia coli and Staphylococcus aureus infection. The aims of the study were to examine the dynamics of the mammary gland response to pathogen invasion and identify general and pathogen-specific transcriptional profiles. Individual udder qu...

ORGANISM(S): Bos taurus

2011-05-01 | E-TABM-704 | biostudies-arrayexpress

Mass spectrometry (LC-MS) of survivin binding proteins immunoprecipitated from human THP1 cells

The oncoprotein survivin, coded by BIRC5 gene has been shown to bind to chromatin. Chromatin immunoprecipitation of stimulated CD4+ T cells with survivin has been published (GSE190354). The role of survivin in transcriptional regulation acting in synergy with transcription factor complexes has been ...

ORGANISM(S): Homo sapiens (Human)

2025-05-06 | PXD049683 | Pride

Human Lc-ms Immunoprecipitation Survivin Thp1

Thermal proteome profiling of stationary-phase E. coli treated with semapimod

There is a need to discover and develop non-toxic antibiotics that are effective against metabolically dormant bacteria, which underlie chronic infections and promote antibiotic resistance. Traditional antibiotic discovery has historically favored compounds effective against actively metabolizing ce...